Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 383,076 C→G 32.1% T162T (ACC→ACG)  entB → isochorismatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE383,0760CG32.1% 120.8 / 79.6 109T162T (ACC→ACG) entBisochorismatase
Reads supporting (aligned to +/- strand):  ref base C (33/41);  new base G (12/23);  total (45/64)
Fisher's exact test for biased strand distribution p-value = 4.05e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01

Only 100 of 109 total aligned reads displayed.

GAGTGGACGTAACCAGCTGATTATTACCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAT  >  minE/383010‑383130
                                                                  |                                                      
gagTGGACGTAACCAGCTGATTATTACCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGa                                                      <  1:916351/69‑1 (MQ=255)
       cGTAACCAGCTGATTATTACCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCAttt                                               >  1:2873065/1‑69 (MQ=255)
       cGTAACCAGCTGATTATTACCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCAtt                                                >  1:1897574/1‑68 (MQ=255)
          aaCCAGCTGATTATTACCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCAtt                                                <  1:2096471/65‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTaa                                 <  1:1816791/69‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTaa                                 <  1:1532339/69‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTaa                                 <  1:1771138/69‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTaa                                 <  1:3077753/69‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTaa                                 <  1:3218827/69‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTa                                  <  1:3001883/68‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTa                                  <  1:1250612/68‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTa                                  <  1:1768804/68‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTa                                  <  1:2439856/68‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTa                                  <  1:2435974/68‑1 (MQ=255)
                     tattaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGAAACCGACGCATTTATGCGCGATATTaa                                 <  1:208856/69‑1 (MQ=255)
                     tattaCCGGCGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTaa                                 <  1:3222730/69‑1 (MQ=255)
                      attaCCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTa                                  <  1:896289/67‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1951055/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1951308/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:598935/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:2172705/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:2314886/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:2491107/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:921667/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:455174/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:3046432/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:3157251/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:3259136/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:3429841/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1079664/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1789076/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1768806/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1280384/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1302524/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:869938/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1536212/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1245238/69‑1 (MQ=255)
                            ggggTATATGCCCACATTGGCTGTATGACCACCGCAACGGACCCATTTATGCGCGATATTAAACCGttt                          <  1:1937201/69‑1 (MQ=255)
                                  tatGCCCACATTGGCTGTATGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:724633/63‑1 (MQ=255)
                                  tatGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAtggtg                    >  1:869879/1‑69 (MQ=255)
                                    tGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAtggtgg                   >  1:3397804/1‑68 (MQ=255)
                                    tGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAtggtgg                   >  1:3340493/1‑68 (MQ=255)
                                    tGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAtggtgg                   >  1:2343069/1‑68 (MQ=255)
                                    tGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAtggtgg                   >  1:1127331/1‑68 (MQ=255)
                                    tGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAtggtg                    >  1:1128339/1‑67 (MQ=255)
                                    tGCCCACATTGGCTGTATGACCACCGCAACCGACGAATTTATGCGCGATATTAAACCGTTTAtggtgg                   >  1:1306481/1‑68 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:538695/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:486355/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:590273/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:2821574/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:388398/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:252679/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:1639301/69‑1 (MQ=255)
                                           aTTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:2094612/69‑1 (MQ=255)
                                            ttGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcgc          >  1:1138605/1‑69 (MQ=255)
                                            ttGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcgc          >  1:1151598/1‑69 (MQ=255)
                                            ttGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcgc          >  1:2975624/1‑69 (MQ=255)
                                            ttGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcgc          >  1:2166357/1‑69 (MQ=255)
                                            ttGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcgc          >  1:2974727/1‑69 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:617267/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:207282/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:3200878/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:2920961/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:536552/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:2288008/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:3312402/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:1079206/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:2576777/60‑1 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTg        >  1:1134659/1‑69 (MQ=255)
                                              ggCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGAGGCg                 <  1:1514550/60‑1 (MQ=255)
                                               gCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCg                 <  1:414850/59‑1 (MQ=255)
                                                   tATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGa   >  1:227555/1‑69 (MQ=255)
                                                     tGACCACCTCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:1399690/1‑68 (MQ=255)
                                                     tGACCACCGCGACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:1798662/1‑46 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAAGCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:2299285/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:78366/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:983411/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:831617/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:291443/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:105656/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:270554/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:2638209/1‑68 (MQ=255)
                                                     tGACCACCGCAACGGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:2439406/1‑68 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:3038178/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:2958946/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:2907641/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        <  1:559475/46‑1 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:2652445/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:68981/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:707303/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        >  1:746459/1‑46 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGa   >  1:1157275/1‑67 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:474710/1‑68 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:1298584/1‑68 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:1815257/1‑68 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAt  >  1:2839573/1‑68 (MQ=255)
                                                     tGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTCGCGGATGCGCTGGCCGAt  >  1:636248/1‑68 (MQ=255)
                                                      gACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTAt                        <  1:1133989/45‑1 (MQ=255)
                                                         caccGCAACGGACGCATTTATGCGCGATATTAAACCGttt                          <  1:1030157/40‑1 (MQ=255)
                                                                aCCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATgcg           <  1:1025226/48‑1 (MQ=255)
                                                                  |                                                      
GAGTGGACGTAACCAGCTGATTATTACCGGGGTATATGCCCACATTGGCTGTATGACCACCGCAACCGACGCATTTATGCGCGATATTAAACCGTTTATGGTGGCGGATGCGCTGGCCGAT  >  minE/383010‑383130

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A